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Attri P, Kumar N, Park JH, Yadav DK, Choi S, Uhm HS, Kim IT, Choi EH, Lee W. Influence of reactive species on the modification of biomolecules generated from the soft plasma. Sci Rep 2015; 5:8221. [PMID: 25649786 PMCID: PMC4316168 DOI: 10.1038/srep08221] [Citation(s) in RCA: 72] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2014] [Accepted: 01/05/2015] [Indexed: 12/26/2022] Open
Abstract
Plasma medicine is an upcoming research area that has attracted the scientists to explore more deeply the utility of plasma. So, apart from the treating biomaterials and tissues with plasma, we have studied the effect of soft plasma with different feeding gases such as Air, N2 and Ar on modification of biomolecules. Hence, in this work we have used the soft plasma on biomolecules such as proteins ((Hemoglobin (Hb) and Myoglobin (Mb)), calf thymus DNA and amino acids. The structural changes or structural modification of proteins and DNA have been studied using circular dichroism (CD), fluorescence spectroscopy, protein oxidation test, gel electrophoresis, UV-vis spectroscopy, dynamic light scattering (DLS) and 1D NMR, while Liquid Chromatograph/Capillary Electrophoresis-Mass Spectrometer (LC/CE-MS) based on qualitative and quantitative bio-analysis have been used to study the modification of amino acids. Further, the thermal analysis of the protein has been studied with differential scanning calorimetry (DSC) and CD. Additionally, we have performed docking studies of H2O2 with Hb and Mb, which reveals that H2O2 molecules preferably attack the amino acids near heme group. We have also shown that N2 gas plasma has strong deformation action on biomolecules and compared to other gases plasma.
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Affiliation(s)
- Pankaj Attri
- Plasma Bioscience Research Center/Department of Electrical and Biological Physics, Kwangwoon University, Seoul, Korea 139-701
| | - Naresh Kumar
- Plasma Bioscience Research Center/Department of Electrical and Biological Physics, Kwangwoon University, Seoul, Korea 139-701
| | - Ji Hoon Park
- Plasma Bioscience Research Center/Department of Electrical and Biological Physics, Kwangwoon University, Seoul, Korea 139-701
| | - Dharmendra Kumar Yadav
- Laboratory of Nanoscale Characterization &Environmental Chemistry, Department of Chemistry, College of Natural Sciences, Hanyang University, Seoul 133-791, Korea
| | - Sooho Choi
- Department of Biochemistry, College of Life Science &Biotechnology, Yonsei University, Seoul 120-749, Korea
| | - Han S Uhm
- Plasma Bioscience Research Center/Department of Electrical and Biological Physics, Kwangwoon University, Seoul, Korea 139-701
| | - In Tae Kim
- Department of Chemistry, Kwangwoon University, Seoul, Korea 139-701
| | - Eun Ha Choi
- Plasma Bioscience Research Center/Department of Electrical and Biological Physics, Kwangwoon University, Seoul, Korea 139-701
| | - Weontae Lee
- Department of Biochemistry, College of Life Science &Biotechnology, Yonsei University, Seoul 120-749, Korea
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Ferreira CMH, Pinto ISS, Soares EV, Soares HMVM. (Un)suitability of the use of pH buffers in biological, biochemical and environmental studies and their interaction with metal ions – a review. RSC Adv 2015. [DOI: 10.1039/c4ra15453c] [Citation(s) in RCA: 189] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Abstract
The present work reviews, discusses and update the metal complexation characteristics of thirty one buffers commercially available. Additionally, their impact on the biological systems is also presented and discussed.
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Affiliation(s)
- Carlos M. H. Ferreira
- REQUIMTE/LAQV
- Department of Chemical Engineering
- Faculty of Engineering
- University of Porto
- Porto
| | - Isabel S. S. Pinto
- REQUIMTE/LAQV
- Department of Chemical Engineering
- Faculty of Engineering
- University of Porto
- Porto
| | - Eduardo V. Soares
- Bioengineering Laboratory
- Chemical Engineering Department
- ISEP-School of Engineering of Polytechnic Institute of Porto
- Porto
- Portugal
| | - Helena M. V. M. Soares
- REQUIMTE/LAQV
- Department of Chemical Engineering
- Faculty of Engineering
- University of Porto
- Porto
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Neya S. Dynamic motion and rearranged molecular shape of heme in myoglobin: structural and functional consequences. Molecules 2013; 18:3168-82. [PMID: 23478515 PMCID: PMC6269712 DOI: 10.3390/molecules18033168] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2013] [Revised: 03/07/2013] [Accepted: 03/07/2013] [Indexed: 11/16/2022] Open
Abstract
Myoglobin, a simple oxygen binding protein, was reconstituted with various types of synthetic hemes to manipulate the heme-globin interactions. From the paramagnetic NMR analysis, small heme was found to rotate rapidly about the iron-histidine bond upon. This is a novel and typical example for the fluctuation of protein. The dynamic NMR analysis indicated that the 360° rotational rate of a small heme was 1,400 s−1 at room temperature. The X-ray analyses revealed that the tertiary structure of globin containing the smallest heme was closely similar to that of native protein despite extensive destruction of the specific heme-globin interactions. The functional analyses of O2 binding showed that the loose heme-globin contacts do not significantly affect the oxygen binding. On the other hand, the rearrangement of tetrapyrrole array and the non-planar deformation in porphyrin ring significantly affect the functional properties of myoglobin. These results, taken together, indicate that the essential factors to regulate the myoglobin function are hidden under the molecular shape of prosthetic group rather than in the nonbonded heme-globin contacts.
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Affiliation(s)
- Saburo Neya
- Department of Physical Chemistry, Graduate School of Pharmaceutical Sciences, Chiba University, Chuoh-Inohana, Chiba City, Chiba 260-8675, Japan.
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Juillard S, Chevance S, Bondon A, Simonneaux G. Dynamics of heme in hemoproteins: proton NMR study of myoglobin reconstituted with iron 3-ethyl-2-methylporphyrin. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2011; 1814:1188-94. [PMID: 21600316 DOI: 10.1016/j.bbapap.2011.04.016] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2011] [Revised: 04/23/2011] [Accepted: 04/27/2011] [Indexed: 11/19/2022]
Abstract
The asymmetric 3-ethyl-2-methylporphyrin iron complex was synthetized and inserted into apomyoglobin. UV-visible spectroscopic studies demonstrated the capacity of iron to coordinate different exogenous axial ligands in ferrous and ferric forms. The position of synthetic heme into the hydrophobic pocket of the reconstituted myoglobin was investigated by ((1))H NMR spectroscopy. In absence of exogenous ligand, signals of the synthetic prosthetic group were not detected, suggesting a rotational disorder of the synthetic porphyrin into the heme pocket. This direct interconversion behavior is favored since site-specific interactions between the poorly substituted heme and protein in the chiral hydrophobic cavity were weak. Complexion of cyanide to the iron allowed to quench partially the heme reorientation and two interconvertible forms, around the meso-Cα-Cγ axis, were detected in solution.
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Affiliation(s)
- Sandrine Juillard
- UMR 6226 Sciences Chimiques de Rennes, Campus de Beaulieu, Université de Rennes 1, Rennes, France
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Juillard S, Bondon A, Simonneaux G. Proton NMR Study of Low‐Spin
meso
‐Unsubstituted β‐Substituted Alkyl Iron Porphyrins: Remarkable Influence of Peripheral Substitution on Spin Density. Eur J Inorg Chem 2007. [DOI: 10.1002/ejic.200700503] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Sandrine Juillard
- Laboratoire de Chimie Organométallique et Biologique, UMR CNRS 6226 Campus de Beaulieu,Université de Rennes 1, 35042 Rennes, France
| | - Arnaud Bondon
- RMN‐ILP, UMR CNRS 6026, IFR 140 PRISM, Campus de Villejean, Université de Rennes 1, 35043 Rennes, France
| | - Gérard Simonneaux
- Laboratoire de Chimie Organométallique et Biologique, UMR CNRS 6226 Campus de Beaulieu,Université de Rennes 1, 35042 Rennes, France
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